Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   R4B61_RS00465 Genome accession   NZ_CP137138
Coordinates   82603..83019 (-) Length   138 a.a.
NCBI ID   WP_413627709.1    Uniprot ID   -
Organism   Fructilactobacillus vespulae strain Mu01     
Function   ssDNA binding (predicted from homology)   
DNA processing

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 54958..94533 82603..83019 within 0


Gene organization within MGE regions


Location: 54958..94533
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4B61_RS00260 (R4B61_00260) - 54958..55212 (-) 255 WP_413627669.1 hypothetical protein -
  R4B61_RS00265 (R4B61_00265) - 55675..56679 (-) 1005 WP_413627670.1 GH25 family lysozyme -
  R4B61_RS00270 (R4B61_00270) - 56679..57062 (-) 384 WP_413627671.1 phage holin, LLH family -
  R4B61_RS00275 (R4B61_00275) - 57062..57319 (-) 258 WP_413627672.1 hypothetical protein -
  R4B61_RS00280 (R4B61_00280) - 57316..57705 (-) 390 WP_413627673.1 hypothetical protein -
  R4B61_RS00285 (R4B61_00285) - 57739..57870 (-) 132 WP_413627674.1 XkdX family protein -
  R4B61_RS00290 (R4B61_00290) - 57872..58150 (-) 279 WP_413627675.1 hypothetical protein -
  R4B61_RS00295 (R4B61_00295) - 58169..59170 (-) 1002 WP_413627676.1 hypothetical protein -
  R4B61_RS00300 (R4B61_00300) - 59170..59712 (-) 543 WP_413627677.1 putative phage tail protein -
  R4B61_RS00305 (R4B61_00305) - 59705..60847 (-) 1143 WP_413627678.1 baseplate J/gp47 family protein -
  R4B61_RS00310 (R4B61_00310) - 60837..61223 (-) 387 WP_413627679.1 DUF2634 domain-containing protein -
  R4B61_RS00315 (R4B61_00315) - 61223..61564 (-) 342 WP_413627680.1 DUF2577 family protein -
  R4B61_RS00320 (R4B61_00320) - 61561..62568 (-) 1008 WP_413627681.1 hypothetical protein -
  R4B61_RS00325 (R4B61_00325) - 62577..63287 (-) 711 WP_413627682.1 hypothetical protein -
  R4B61_RS00330 (R4B61_00330) - 63302..66709 (-) 3408 WP_413627683.1 tape measure protein -
  R4B61_RS00335 (R4B61_00335) - 66969..67367 (-) 399 WP_413627684.1 phage tail assembly chaperone -
  R4B61_RS00340 (R4B61_00340) - 67387..67836 (-) 450 WP_413627685.1 phage tail tube protein -
  R4B61_RS00345 (R4B61_00345) - 67848..69215 (-) 1368 WP_413627686.1 phage tail sheath family protein -
  R4B61_RS00350 (R4B61_00350) - 69218..69472 (-) 255 WP_413627687.1 hypothetical protein -
  R4B61_RS00355 (R4B61_00355) - 69488..69871 (-) 384 WP_413627688.1 DUF6838 family protein -
  R4B61_RS00360 (R4B61_00360) - 69868..70275 (-) 408 WP_413627689.1 HK97 gp10 family phage protein -
  R4B61_RS00365 (R4B61_00365) - 70275..70661 (-) 387 WP_413627690.1 hypothetical protein -
  R4B61_RS00370 (R4B61_00370) - 70655..71023 (-) 369 WP_413627691.1 hypothetical protein -
  R4B61_RS00375 (R4B61_00375) - 71033..71929 (-) 897 WP_413627692.1 hypothetical protein -
  R4B61_RS00380 (R4B61_00380) - 71943..72485 (-) 543 WP_413627693.1 phage scaffolding protein -
  R4B61_RS00385 (R4B61_00385) - 72619..72825 (-) 207 WP_413627694.1 hypothetical protein -
  R4B61_RS00390 (R4B61_00390) - 72815..74140 (-) 1326 WP_413627695.1 minor capsid protein -
  R4B61_RS00395 (R4B61_00395) - 74152..75546 (-) 1395 WP_413627696.1 phage portal protein -
  R4B61_RS00400 (R4B61_00400) - 75560..76843 (-) 1284 WP_413627697.1 PBSX family phage terminase large subunit -
  R4B61_RS00405 (R4B61_00405) - 76821..77630 (-) 810 WP_413627698.1 terminase small subunit -
  R4B61_RS00410 (R4B61_00410) - 77926..78345 (-) 420 WP_413627699.1 ArpU family phage packaging/lysis transcriptional regulator -
  R4B61_RS00415 (R4B61_00415) - 78424..78651 (-) 228 WP_413627700.1 hypothetical protein -
  R4B61_RS00420 (R4B61_00420) - 78651..78902 (-) 252 WP_413627701.1 hypothetical protein -
  R4B61_RS00425 (R4B61_00425) - 78895..79134 (-) 240 WP_413627702.1 hypothetical protein -
  R4B61_RS00430 (R4B61_00430) - 79127..79426 (-) 300 WP_413627703.1 hypothetical protein -
  R4B61_RS00435 (R4B61_00435) - 79431..79916 (-) 486 WP_413627704.1 hypothetical protein -
  R4B61_RS00440 (R4B61_00440) - 79934..80182 (-) 249 WP_413627705.1 hypothetical protein -
  R4B61_RS00445 (R4B61_00445) - 80185..80559 (-) 375 WP_413627706.1 DUF1064 domain-containing protein -
  R4B61_RS00450 (R4B61_00450) - 80543..80911 (-) 369 WP_413627707.1 hypothetical protein -
  R4B61_RS00455 (R4B61_00455) - 81071..81874 (-) 804 WP_413628261.1 ATP-binding protein -
  R4B61_RS00460 (R4B61_00460) - 81855..82592 (-) 738 WP_413627708.1 DnaD domain protein -
  R4B61_RS00465 (R4B61_00465) ssb 82603..83019 (-) 417 WP_413627709.1 single-stranded DNA-binding protein Machinery gene
  R4B61_RS00470 (R4B61_00470) - 83019..83186 (-) 168 WP_413627710.1 hypothetical protein -
  R4B61_RS00475 (R4B61_00475) - 83152..83280 (-) 129 WP_413627711.1 hypothetical protein -
  R4B61_RS00480 (R4B61_00480) - 83397..83567 (-) 171 WP_413627712.1 hypothetical protein -
  R4B61_RS00485 (R4B61_00485) - 83567..83830 (-) 264 WP_413627713.1 hypothetical protein -
  R4B61_RS00490 (R4B61_00490) - 83848..83982 (-) 135 WP_413627714.1 hypothetical protein -
  R4B61_RS00495 (R4B61_00495) - 84069..84866 (-) 798 WP_413627715.1 ORF6N domain-containing protein -
  R4B61_RS00500 (R4B61_00500) - 84877..85074 (-) 198 WP_413627716.1 XRE family transcriptional regulator -
  R4B61_RS00505 (R4B61_00505) - 85304..85645 (+) 342 WP_413627717.1 helix-turn-helix domain-containing protein -
  R4B61_RS00510 (R4B61_00510) - 85648..86400 (+) 753 WP_413627718.1 ImmA/IrrE family metallo-endopeptidase -
  R4B61_RS00515 (R4B61_00515) - 86449..87042 (+) 594 WP_413627719.1 hypothetical protein -
  R4B61_RS00520 (R4B61_00520) - 87123..88244 (+) 1122 WP_413627720.1 tyrosine-type recombinase/integrase -
  R4B61_RS00545 (R4B61_00545) - 93769..94533 (-) 765 WP_413627721.1 DUF4811 domain-containing protein -

Sequence

Protein


Download         Length: 138 a.a.        Molecular weight: 15517.11 Da        Isoelectric Point: 4.9533

>NTDB_id=896460 R4B61_RS00465 WP_413627709.1 82603..83019(-) (ssb) [Fructilactobacillus vespulae strain Mu01]
MINTTVLTGRLTRDVELRYTQKGDTNGTFTLAVDRRFKNANGDREADFVNCVIWRKSAENLANFVGKGSLIGVEGRLQTR
NYENKQGQRVFVTEVVVENFTLLDTRADSSNRTGYQNNQSSPFSGGDQIDVSEEELPF

Nucleotide


Download         Length: 417 bp        

>NTDB_id=896460 R4B61_RS00465 WP_413627709.1 82603..83019(-) (ssb) [Fructilactobacillus vespulae strain Mu01]
ATGATTAACACAACAGTTTTAACAGGACGACTAACAAGAGATGTGGAATTAAGATATACGCAAAAAGGTGATACAAACGG
AACATTTACATTGGCTGTTGATAGACGTTTTAAGAACGCAAATGGTGACCGTGAAGCAGATTTCGTTAATTGCGTTATCT
GGCGTAAATCAGCTGAAAATTTAGCTAATTTCGTTGGCAAGGGATCACTAATCGGAGTTGAAGGACGTTTGCAAACTAGA
AACTATGAAAACAAGCAAGGACAGCGTGTCTTTGTTACGGAAGTAGTAGTTGAAAACTTCACCTTACTAGATACCAGAGC
CGACTCATCTAATAGAACTGGCTACCAAAATAATCAATCTAGTCCATTTAGTGGTGGCGACCAAATCGATGTCAGTGAGG
AGGAACTTCCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ssb Latilactobacillus sakei subsp. sakei 23K

54.706

100

0.674
  ssbA Bacillus subtilis subsp. subtilis str. 168

48.256

100

0.601
  ssbB/cilA Streptococcus pneumoniae TIGR4

47.857

100

0.486
  ssbB/cilA Streptococcus mitis NCTC 12261

47.857

100

0.486
  ssbB/cilA Streptococcus pneumoniae Rx1

47.143

100

0.478
  ssbB/cilA Streptococcus pneumoniae D39

47.143

100

0.478
  ssbB/cilA Streptococcus pneumoniae R6

47.143

100

0.478
  ssbB/cilA Streptococcus mitis SK321

47.143

100

0.478
  ssbB Streptococcus sobrinus strain NIDR 6715-7

44.203

100

0.442
  ssbA Streptococcus mutans UA159

43.478

100

0.435
  ssbB Bacillus subtilis subsp. subtilis str. 168

53.774

76.812

0.413
  ssbB Lactococcus lactis subsp. cremoris KW2

47.17

76.812

0.362